-
recipe
bioconductor-tvtb¶ The package provides S4 classes and methods to filter, summarise and visualise genetic variation data stored in VCF files. In particular, the package extends the FilterRules class (S4Vectors package) to define news classes of filter rules applicable to the various slots of VCF objects. Functionalities are integrated and demonstrated in a Shiny web-application, the Shiny Variant Explorer (tSVE).
- Homepage
- License
Artistic-2.0
- Recipe
- Links
biotools: tvtb, doi: 10.1038/nmeth.3252
-
package
bioconductor-tvtb¶ 
- Versions
1.8.0-0, 1.6.0-0, 1.4.0-0
- Depends bioconductor-annotationfilter
>=1.6.0,<1.7.0
- Depends bioconductor-biocgenerics
>=0.28.0,<0.29.0
- Depends bioconductor-biocparallel
>=1.16.0,<1.17.0
- Depends bioconductor-biostrings
>=2.50.0,<2.51.0
- Depends bioconductor-ensembldb
>=2.6.0,<2.7.0
- Depends bioconductor-ensemblvep
>=1.24.0,<1.25.0
- Depends bioconductor-genomeinfodb
>=1.18.0,<1.19.0
- Depends bioconductor-genomicranges
>=1.34.0,<1.35.0
- Depends bioconductor-gviz
>=1.26.0,<1.27.0
- Depends bioconductor-iranges
>=2.16.0,<2.17.0
- Depends bioconductor-limma
>=3.38.0,<3.39.0
- Depends bioconductor-rsamtools
>=1.34.0,<1.35.0
- Depends bioconductor-s4vectors
>=0.20.0,<0.21.0
- Depends bioconductor-summarizedexperiment
>=1.12.0,<1.13.0
- Depends bioconductor-variantannotation
>=1.28.0,<1.29.0
- Depends r-base
>=3.5.1,<3.5.2.0a0
- Depends r-ggally
- Depends r-ggplot2
- Depends r-reshape2
- Requirements
Installation
With an activated Bioconda channel (see 2. Set up channels), install with:
conda install bioconductor-tvtb
and update with:
conda update bioconductor-tvtb
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-tvtb:<tag>
(see bioconductor-tvtb/tags for valid values for
<tag>)
Link to this page¶
Render an 
badge with the following MarkDown:
[](http://bioconda.github.io/recipes/bioconductor-tvtb/README.html)